# List of top-scoring protein chains for t2k-100-30-str2 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1x23A 155 7.86e-45 1z2uA 150 2.63e-44 2ayvA 166 4.15e-44 1y6lA 149 1.08e-42 2bepA 159 1.97e-40 1jatA 155 2.39e-39 1u9aA d.20.1.1 62818 1jbbA 153 2.71e-39 1u9aA d.20.1.1 62842 2e2c 156 5.61e-39 1u9aA d.20.1.1 38336 1yh2A 175 7.24e-39 1u9aA 160 1.10e-38 1u9aA d.20.1.1 38333 1fzyA 149 1.28e-38 d.20.1.1 65072 2ucz 165 1.37e-38 1u9aA d.20.1.1 38330 1i7kA 179 5.48e-38 1u9aA d.20.1.1 61889 1fxtA 149 2.53e-36 d.20.1.1 65055 1zdnA 158 3.63e-36 1yrvA 169 2.63e-34 1yh6A 179 6.17e-34 2awfA 172 3.24e-33 1yf9A 171 5.44e-33 1wzvA 155 4.60e-32 2a4dA 160 9.19e-29 1j7dA 145 3.78e-27 1jatB d.20.1.1 62680 1jatB 138 5.53e-27 1jatB d.20.1.1 62819 1zuoA 186 7.37e-18 1s1qA 145 9.53e-07 d.20.1.2 98351 1uzxA 169 5.42e-06 d.20.1.2 100238 1kppA 145 8.79e-05 d.20.1.2 72846 2ac3A 316 1.00e-01 1h3fA 432 2.77e-01 c.26.1.1 76631 d.66.1.4 76632 1ukxA 137 4.01e-01 d.20.1.3 107919 2es9A 115 4.54e-01 2ac5A 316 5.29e-01 1jpzA 473 6.02e-01 a.104.1.1 67069 1gtkA 313 8.29e-01 c.94.1.1 76346 d.50.2.1 76347 6gsvA 217 8.55e-01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1ny9A 143 9.40e-01 a.181.1.1 86401 1htrB 329 9.79e-01 1smrA 1eqfA 280 1.43e+00 1eqfA a.29.2.1 16972 a.29.2.1 16973 1t5eA 360 1.57e+00 f.46.1.1 106436 1bu7A 455 1.93e+00 1bu7A a.104.1.1 18937 1ezvH 74 2.02e+00 1be3H f.28.1.1 59552 1kb9F 74 2.23e+00 f.28.1.1 77321 1pda 315 2.49e+00 1pda c.94.1.1 35751 d.50.2.1 38794 2bi7A 384 2.53e+00 1nu5A 370 2.70e+00 c.1.11.2 92183 d.54.1.1 92184 1chrA 370 3.17e+00 1mucA c.1.11.2 29252 d.54.1.1 38896 1usuA 260 3.23e+00 d.14.1.8 99885 1y4wA 518 3.30e+00 1i8kB 124 3.99e+00 b.1.1.1 71131 2bnxA 386 4.29e+00 1ej8A 140 4.39e+00 1qupA b.1.8.1 22300 1um0A 365 4.42e+00 d.258.1.1 107942 1qupA 222 4.45e+00 1qupA b.1.8.1 22301 d.58.17.1 39352 1vfaB 116 4.55e+00 1gc1H b.1.1.1 19929 1a2yB 116 4.70e+00 1gc1H b.1.1.1 19927 1fohA 664 4.83e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1kbhB 59 4.83e+00 a.153.1.1 68383 1ugjA 141 4.90e+00 b.41.1.3 107826 1eyvA 156 5.00e+00 1eyvA a.79.1.1 18446 1k38A 254 5.34e+00 e.3.1.1 84303 1vj7A 393 5.44e+00 a.211.1.1 100801 d.218.1.8 100802 1g7jB 116 5.63e+00 1f3rB b.1.1.1 19933 1jw3A 140 5.73e+00 d.208.1.1 67373 1i5nA 146 5.79e+00 1i5nA a.24.10.3 61805 1pn0A 665 6.09e+00 c.3.1.2 94918 c.47.1.10 94919 d.16.1.2 94920 1tgoA 773 6.19e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1nekC 129 6.23e+00 f.21.2.2 80431 2auaA 224 6.34e+00 1qgiA 259 7.39e+00 1qgiA d.2.1.7 37001 1ks8A 433 7.89e+00 a.102.1.2 77519 2bmhA 455 8.09e+00 1bu7A a.104.1.1 18941 2c1dA 264 8.28e+00 1w27A 714 8.97e+00 1fz1C 389 9.69e+00 1mtyB a.25.1.2 16746 1winA 143 9.76e+00 1crzA 403 1.07e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 2bzuA 181 1.11e+01 1fm2A 169 1.12e+01 1fm2A d.153.1.2 59877 1go3E 187 1.12e+01 b.40.4.5 83054 d.230.1.1 83055 1n67A 359 1.18e+01 b.2.3.4 85354 b.2.3.4 85355 1sedA 117 1.20e+01 a.219.1.1 105449 1qnrA 344 1.20e+01 1qnoA c.1.8.3 28834 1ordA 730 1.21e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1otkA 249 1.21e+01 a.25.1.2 93521 1ezfA 340 1.24e+01 1ezfA a.128.1.2 19440 1wwcA 118 1.25e+01 1wwcA b.1.1.4 21778 1rcd 173 1.25e+01 2fha a.25.1.1 16687 2abk 211 1.28e+01 2abk a.96.1.1 18743 1h3oB 76 1.32e+01 a.22.1.3 76645 1fuxA 166 1.33e+01 1fjjA b.17.1.2 60034 4pep 326 1.35e+01 1smrA b.50.1.2 26843 1qnoA 344 1.35e+01 1qnoA c.1.8.3 28838 1aa0 113 1.36e+01 1aa0 h.1.17.1 45659 1s12A 94 1.38e+01 1ywzA 175 1.39e+01 1qhtA 775 1.50e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1phk 298 1.51e+01 1cdkA d.144.1.7 41635 8prkA 287 1.52e+01 1wgjA b.40.5.1 25395 1ir6A 424 1.54e+01 c.107.1.2 71342 1dvfD 120 1.55e+01 1mfa b.1.1.1 20107 1c1kA 217 1.58e+01 1c1kA a.120.1.1 19239 1c5kA 439 1.65e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1iapA 211 1.72e+01 a.91.1.1 62119 1vf7A 369 1.76e+01 f.46.1.1 108557 1cd9C 175 1.77e+01 1bgc a.26.1.1 16816 2bzvA 181 1.78e+01 1wloA 136 1.81e+01 1gz2A 142 1.86e+01 d.169.1.1 83392 1senA 164 2.04e+01 c.47.1.1 105465 1yewA 382 2.05e+01 1seiA 130 2.08e+01 1seiA d.140.1.1 41463 1tafA 68 2.16e+01 1tafA a.22.1.3 16481 2biiA 424 2.17e+01 1bea 127 2.20e+01 1bea a.52.1.2 17826 1oebA 62 2.21e+01 b.34.2.1 86909 1utiA 58 2.23e+01 b.34.2.1 99962 1yqcA 170 2.23e+01 1w4xA 542 2.24e+01 c.3.1.5 109171 c.3.1.5 109172 1qfhA 212 2.24e+01 1qfhA b.1.18.10 21893 b.1.18.10 21894 1c4kA 730 2.26e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1ornA 226 2.33e+01 a.96.1.1 87342 1yx4A 132 2.39e+01 1q08A 99 2.43e+01 a.6.1.3 95497 1es2A 262 2.49e+01 1skf e.3.1.1 42680 1e9gA 286 2.49e+01 1wgjA b.40.5.1 59393 1dseA 292 2.53e+01 1ryc a.93.1.1 59130 1bfa 134 2.53e+01 1bea a.52.1.2 17827 1wlqC 201 2.53e+01 a.4.5.52 109400 1jj2L 194 2.57e+01 1ffkI d.12.1.2 63097 1iu4A 331 2.58e+01 d.3.1.8 71430 1brwA 433 2.65e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1a81A 254 2.65e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1q8bA 105 2.88e+01 d.58.4.6 96201 1bihA 395 2.91e+01 1bihA b.1.1.4 21752 b.1.1.4 21753 b.1.1.4 21754 b.1.1.4 21755 1krhA 338 2.91e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1mqkH 127 2.94e+01 b.1.1.1 85053 1u0fA 564 2.99e+01 1srqA 341 3.02e+01 e.55.1.1 105967 1oaqH 121 3.06e+01 b.1.1.1 92707 3psg 370 3.17e+01 1smrA b.50.1.2 26841 1l0qA 391 3.19e+01 b.1.3.1 77644 b.69.2.3 77645 1kqwA 134 3.23e+01 b.60.1.2 72887 2anpA 291 3.27e+01 1dmhA 311 3.33e+01 1dmhA b.3.6.1 22633 1j4wA 174 3.35e+01 d.51.1.1 71529 d.51.1.1 71530 1lokA 291 3.37e+01 c.56.5.4 78122 1w94A 156 3.39e+01 1fc3A 120 3.45e+01 1fc3A a.4.6.3 16237 1wgjA 286 3.48e+01 1wgjA b.40.5.1 25397 1iynA 295 3.55e+01 a.93.1.1 90722 1nnxA 109 3.57e+01 b.40.10.1 92013 1e9gB 286 3.59e+01 1wgjA b.40.5.1 59394 1bs0A 384 3.60e+01 1bs0A c.67.1.4 34490 1es4A 262 3.61e+01 1skf e.3.1.1 42683 1e1aA 314 3.64e+01 1e1aA b.68.6.1 59155 1jk0A 419 3.77e+01 a.25.1.2 63142 1ayaA 101 3.84e+01 1qadA d.93.1.1 40460 1or0A 160 3.88e+01 d.153.1.2 93445 1z2cB 383 3.93e+01 2ar9A 278 3.94e+01 1xszA 356 3.97e+01 2a4nA 182 3.97e+01 1molA 94 3.97e+01 1molA d.17.1.1 37988 1fy2A 229 3.97e+01 1fyeA c.23.16.4 31478